Cloning and gene map assignment of the Xiphophorus DNA ligase 1 gene

Fishes represent the stem vertebrate condition and have maintained several gene arrangements common to mammalian genomes throughout the 450 Myr of divergence from a common ancestor. One such syntenic arrangement includes the GPI-PEPD enzyme association on Xiphophorus linkage group IV and human chromosome 19. Previously we assigned the Xiphophorus homologue of the human ERCC2 gene to linkage group U5 in tight association with the CKM locus. CKM is also tightly linked to the ERCC2 locus on human chromosome 19, leading to speculation that human chromosome 19 may have arisen by fusion of two ancestral linkage groups which have been maintained in fishes. To investigate this hypothesis further, we isolated and sequenced Xiphophorus fish genomic regions exhibiting considerable sequence similarity to the human DNA ligase 1 amino acid sequence. Comparison of the fish DNA ligase sequence with those of other species suggests several modes of amino acid conservation in this gene. A 2.2-kb restriction fragment containing part of an X. maculatus DNA ligase 1 exon was used in backcross hybrid mapping with 12 enzyme or RFLP loci. Significant linkage was observed between the nucleoside phosphorylase (NP2) and the DNA ligase (LIG1) loci on Xiphophorus linkage group VI. This assignment suggests that the association of four DNA repair-related genes on human chromosome 19 may be the result of chance chromosomal rearrangements.      

Electro-optical behaviour of CuFe2O4@rGO nanocomposite for nonenzymatic detection of uric acid via the electrochemical method

Uric acid (UA) is a blood and urine component obtained as a metabolic by-product of purine nucleotides. Abnormalities in UA metabolism cause crystal deposition as monosodium urate and lead to various diseases such as gout, hyperuricemia, Lesch–Nyhan syndrome, etc. Monitoring these diseases requires a rapid, sensitive, selective, and portable detection approach. Therefore, this study demonstrates the hydrothermal synthesis of CuFe₂O₄/reduced graphene oxide (rGO) nanocomposite for selective detection of UA. After the nanocomposite synthesis, characterization was performed by X-ray diffraction spectroscopy, Fourier transform infrared spectroscopy, Raman spectroscopy, X-ray photoelectron spectroscopy, UV–visible spectrometry, atomic force spectroscopy, scanning electron microscopy, and electrochemical analysis. Furthermore, from the electrochemical analysis using cyclic voltammetry (CV), kinetic studies were carried out by varying the scan rate to obtain the diffusion coefficient, surface concentration, and rate of charge transfer to achieve a calibration curve that indicates the quasi reversible nature of the fabricated electrode with a linear regression coefficient of oxidation (R²: 0.9992) and reduction (R²: 0.9971) peaks. Moreover, the fabricated nonenzymatic amperometric sensor to detect UA with a linearity (R²: 0.9989) of 1–400 μM was highly sensitive (2.75 × 10⁻⁴ mAμM⁻¹ cm⁻²) and had a lower limit of detection (0.01231 μM) at pH 7.5 in phosphate-buffered saline solution. Therefore, the CuFe₂O₄/rGO/ITO-based nonenzymatic sensor could detect interfering agents and spiked real bovine serum samples with higher sensitivity and selectivity for UA detection.     

Song mimicry and species associations of west African indigobirds Vidua with Quail-finch Ortygospiza atricollis, Goldbreast Amandava subflava and Brown Twinspot Clytospiza monteiri

The brood-parasitic indigobirds Vidua spp. mimic the songs of their foster species, which for many species of indigobirds are Lagonosticta firefinches. We report additional associations of indigobirds with estrildid finches in west Africa. Quail-finch Indigobirds Vidua nigeriae in northern Cameroon mimic the songs of Quail-finch Ortygospiza atricollis . Gold-breast Indigobirds Vidua raricola in Cameroon and Sierra Leone mimic the songs of Gold-breast Amandava subflava . Both indigobirds are distinct in male breeding plumage from other indigobirds. Also, a population of blue indigobirds Vidua sp. in Cameroon mimics the songs of Brown Twinspot Clytospiza monteiri . They are similar in colour and size to blue indigobirds associated with Dark Firefinch L. rubricata and Black-bellied Firefinch L. rara . Mouth patterns of fledged young Quail-finch Indigobirds and Goldbreast Indigobirds resemble those of their song-model and presumed foster species, but the mouth pattern of a fledged young associated with the Brown Twinspot mimic was not distinct from the mouth of young Black-bellied Firefinch. The field observations show associations of certain species of indigobirds with finches other than the firefinches. The results are consistent with mitochondrial DNA estimates of greater genetic similarity among indigobirds than among their foster species. The field observations support the hypothesis of evolutionary associations of the brood parasite and foster species by colonization with switching from one foster to another rather than by cospeciation.     

An RNA folding method capable of identifying pseudoknots and base triples

MOTIVATION: Recently, we described a Maximum Weighted Matching (MWM) method for RNA structure prediction. The MWM method is capable of detecting pseudoknots and other tertiary base-pairing interactions in a computationally efficient manner (Cary and Stormo, Proceedings of the Third International Conference on Intelligent Systems for Molecular Biology, pp. 75-80, 1995). Here we report on the results of our efforts to improve the MWM method's predictive accuracy, and show how the method can be extended to detect base interactions formerly inaccessible to automated RNA modeling techniques. RESULTS: Improved performance in MWM structure prediction was achieved in two ways. First, new ways of calculating base pair likelihoods have been developed. These allow experimental data and combined statistical and thermodynamic information to be used by the program. Second, accuracy was improved by developing techniques for filtering out spurious base pairs predicted by the MWM program. We also demonstrate here a means by which the MWM folding method may be used to detect the presence of base triples in RNAs. AVAILABILITY: http://www.cshl.org/mzhanglab/tabaska/j axpage. html CONTACT: tabaska@cshl.org      

The use of water and some inorganic salt solutions to advance sugar beet seed. I. Laboratory studies

The emergence of sugar beet seedlings is often slow or irregular and insufficient plants may be established for the crop to yield fully. Treating the seed prior to sowing, such that the subsequent germination percentage is not reduced but germination is more rapid and better synchronised should be beneficial. A series of laboratory experiments was made to investigate seed treatment procedures involving water and various inorganic salt solutions. Many treatment combinations were identified which gave faster germination without decreasing germination percentage and left the seed dry and intact and suitable for sowing with conventional precision drills. No treatment was found which ‘primed’ the sugar beet seed and the term seed ‘advancement’ describes, more accurately, the effects observed. There was little difference in the performance of seeds optimally treated with water or some salt solutions generating an osmotic potential of between about –10 and –20 bars. However, the use of salt solutions, although more complicated, was preferred to water as inadvertent germination during treatment was less likely. The optimum treatment for the one bulk of sugar beet seed studied was, firstly, to wash the seeds for 3.5 h with water, then after air-drying, to moisten them on filter paper dampened with –15 bar (0–34 M) sodium chloride solution for 6 days at 15^oC followed by a final wash and air-drying.     

Genbank accession #: AF139098

Plant Molecular Biology -